ViralPop

ViralPop-class

Viral population data containing genotypes

Statistical Methods for Inferring Transmissions of Infectious Diseases from deep sequencing data (SMITID).
It allow sequence-space-time host and viral population data storage, indexation and querying.

Jean-Francois Rey

SMITIDstruct

Data Structure and Manipulations Tool for Host and Viral
Population

ViralPop function

<dl class="dl-horizontal">
<dt><code>ID</code></dt><dd>Host identifier</dd></dl><dt><code>time</code></dt><dd>Observation time as numeric since 1970/01/01</dd><dt><code>size</code></dt><dd>Qt of variants</dd><dt><code>names</code></dt><dd>list of variants id with same sequence</dd><dt><code>genotypes</code></dt><dd>all variants genotypes (as DNAStringSet)</dd><dt><code>proportions</code></dt><dd>proportions of each variants</dd>

ViralPop: Class ViralPop

Description

Arguments

Slots